PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

RrC6409_p3

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

NAC

Protein Properties

Length: 401aa MW: 45533.9 Da PI: 5.3795

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC6409_p3	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	167.6	4.1e-52	24	153	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp.k...kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk 95 l+pGfrFhPtdeelv++yLk+kv gk++++ ++i evdiyk+ePwdL + k++++++ewyf+s dkky +g r nrat++gyWkatgkd+e+ + RrC6409_p3 24 LAPGFRFHPTDEELVSYYLKRKVLGKPVRF-DAIGEVDIYKHEPWDLAgNedkKLRTRDQEWYFYSALDKKYGNGARMNRATNKGYWKATGKDREIRR- 120 579**********************999.99**********7435668888999*********************************9. PP NAM 96 kgelvglkktLvfykgrapkgektdWvmheyrl 128 + + g+kktLvf++grap+g +t+Wvmheyrl RrC6409_p3 121 DVHILGMKKTLVFHSGRAPDGLRTNWVMHEYRL 153 999**************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	2.09E-59	18	178	IPR003441	NAC domain
PROSITE profile	PS51005	56.956	24	177	IPR003441	NAC domain
Pfam	PF02365	6.4E-27	26	153	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 401 aa Download sequence Send to blast
MGRESAVAVV SSSPPSTVVA ATALAPGFRF HPTDEELVSY YLKRKVLGKP VRFDAIGEVD 60 IYKHEPWDLA GNEDKKLRTR DQEWYFYSAL DKKYGNGARM NRATNKGYWK ATGKDREIRR 120 DVHILGMKKT LVFHSGRAPD GLRTNWVMHE YRLVDYEIES NGNLVQDAYV LCRIFHKNNI 180 GPPSGNRYAP FMEEEWSDDG MQSASKDIIN INETPRETNT PMDIEVNHKD NNNNRCCDED 240 EEALKREEAD EEDEHPPPPP SLCILNKEAP LPLLQYKRRR QNESTRTTTQ DHCSSTITTV 300 DNTPTTAAAA ATNTAISALL EFSLMGLSDK KENQPQPLAP LPSPEEKLND LQKEIHQMSV 360 ERETFKLEMM SAEAMISILQ SRIDALRQEN DELKKNSANG H

Sequence ? help Back to Top

Protein Sequence Length: 401 aa Download sequence Send to blast

MGRESAVAVV SSSPPSTVVA ATALAPGFRF HPTDEELVSY YLKRKVLGKP VRFDAIGEVD  60
IYKHEPWDLA GNEDKKLRTR DQEWYFYSAL DKKYGNGARM NRATNKGYWK ATGKDREIRR  120
DVHILGMKKT LVFHSGRAPD GLRTNWVMHE YRLVDYEIES NGNLVQDAYV LCRIFHKNNI  180
GPPSGNRYAP FMEEEWSDDG MQSASKDIIN INETPRETNT PMDIEVNHKD NNNNRCCDED  240
EEALKREEAD EEDEHPPPPP SLCILNKEAP LPLLQYKRRR QNESTRTTTQ DHCSSTITTV  300
DNTPTTAAAA ATNTAISALL EFSLMGLSDK KENQPQPLAP LPSPEEKLND LQKEIHQMSV  360
ERETFKLEMM SAEAMISILQ SRIDALRQEN DELKKNSANG H

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	2e-45	23	179	16	167	NO APICAL MERISTEM PROTEIN
1ut4_B	2e-45	23	179	16	167	NO APICAL MERISTEM PROTEIN
1ut7_A	2e-45	23	179	16	167	NO APICAL MERISTEM PROTEIN
1ut7_B	2e-45	23	179	16	167	NO APICAL MERISTEM PROTEIN
3swm_A	1e-45	23	179	19	170	NAC domain-containing protein 19
3swm_B	1e-45	23	179	19	170	NAC domain-containing protein 19
3swm_C	1e-45	23	179	19	170	NAC domain-containing protein 19
3swm_D	1e-45	23	179	19	170	NAC domain-containing protein 19
3swp_A	1e-45	23	179	19	170	NAC domain-containing protein 19
3swp_B	1e-45	23	179	19	170	NAC domain-containing protein 19
3swp_C	1e-45	23	179	19	170	NAC domain-containing protein 19
3swp_D	1e-45	23	179	19	170	NAC domain-containing protein 19
4dul_A	2e-45	23	179	16	167	NAC domain-containing protein 19
4dul_B	2e-45	23	179	16	167	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor that binds to the motif 5'-(C/T)A(C/A)G-3' in the promoter of target genes (PubMed:25578968). Binds also to the 5'-CTTGNNNNNCAAG-3' consensus sequence in chromatin (PubMed:26617990). Can bind to the mitochondrial dysfunction motif (MDM) present in the upstream regions of mitochondrial dysfunction stimulon (MDS) genes involved in mitochondrial retrograde regulation (MRR) (PubMed:24045019). Together with NAC051/NAC052 and JMJ14, regulates gene expression and flowering time by associating with the histone demethylase JMJ14, probably by the promotion of RNA-mediated gene silencing (PubMed:25578968, PubMed:26617990). {ECO:0000269\|PubMed:24045019, ECO:0000269\|PubMed:25578968, ECO:0000269\|PubMed:26617990}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KC966753	0.0	KC966753.1 Brassica napus NAC transcription factor 51 (NAC51.1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018439555.1	0.0	PREDICTED: NAC domain-containing protein 53-like isoform X1
Swissprot	Q9SQX9	0.0	NAC50_ARATH; NAC domain containing protein 50
TrEMBL	A0A0D3AEQ2	0.0	A0A0D3AEQ2_BRAOL; Uncharacterized protein
STRING	Bo1g143850.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1780	28	80

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G10480.1	0.0	NAC domain containing protein 50

Publications ? help Back to Top
Zhang S, et al. C-terminal domains of a histone demethylase interact with a pair of transcription factors and mediate specific chromatin association. Cell Discov, 2019. [PMID:26617990]